Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet

Nagabhushana Kotrappa; Shailaja Hittalmani; Krishna Venkatarangaiah

doi:doi:10.11648/j.ijgg.20170504.12

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Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet

Nagabhushana Kotrappa, Shailaja Hittalmani, Krishna Venkatarangaiah

Published in International Journal of Genetics and Genomics (Volume 5, Issue 4)

Received: 16 June 2017 Accepted: 3 July 2017 Published: 1 August 2017

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Abstract

The accessibility to public sequence information has paved the way for development of new genomic resources and its cross transferability among closely related genera. In the present study, the nucleotide and EST sequences derived from nine different species of Eleusine were utilized for identifying microsatellite markers and their transferability in E. coracana. The frequency and distribution of repeat motifs of Di, tri, tetra and penta-nucleotide repeats were compared across species. The nucleotide/EST sequences, classified based on their function, were majorly involved in abiotic stress followed by carbohydrate biosynthesis in all the species. Of 2133 primers designed, tri-nucleotide repeats were more abundant (1043) followed by repeats in compound format (963). A highest number of 1660 primer pairs were identified in E. coracana subsp. coracana and nearly 50% of which contained compound repeats, majorly comprising of di-nucleotides. The frequency of microsatellite repeats and the number of primers designed per sequence were maximum in E. kigeziensis (138%) followed by E. floccifolia (126%) while the same was minimum in E. coracana subsp. africana (53%). While the transferability of microsatellites derived from other Eleusine species to cultivated coracana species ranged from 50 to 100%, the primers derived from cultivated species were more informative than from that of wild relatives.

Published in	International Journal of Genetics and Genomics (Volume 5, Issue 4)
DOI	10.11648/j.ijgg.20170504.12
Page(s)	42-48
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2024. Published by Science Publishing Group

Keywords

Finger Millet, Wild Relatives, EST-SSRs, Cross-Species Transferability

References

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APA Style

Nagabhushana Kotrappa, Shailaja Hittalmani, Krishna Venkatarangaiah. (2017). Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet. International Journal of Genetics and Genomics, 5(4), 42-48. https://doi.org/10.11648/j.ijgg.20170504.12

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ACS Style

Nagabhushana Kotrappa; Shailaja Hittalmani; Krishna Venkatarangaiah. Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet. Int. J. Genet. Genomics 2017, 5(4), 42-48. doi: 10.11648/j.ijgg.20170504.12

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AMA Style

Nagabhushana Kotrappa, Shailaja Hittalmani, Krishna Venkatarangaiah. Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet. Int J Genet Genomics. 2017;5(4):42-48. doi: 10.11648/j.ijgg.20170504.12

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@article{10.11648/j.ijgg.20170504.12,
  author = {Nagabhushana Kotrappa and Shailaja Hittalmani and Krishna Venkatarangaiah},
  title = {Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet},
  journal = {International Journal of Genetics and Genomics},
  volume = {5},
  number = {4},
  pages = {42-48},
  doi = {10.11648/j.ijgg.20170504.12},
  url = {https://doi.org/10.11648/j.ijgg.20170504.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijgg.20170504.12},
  abstract = {The accessibility to public sequence information has paved the way for development of new genomic resources and its cross transferability among closely related genera. In the present study, the nucleotide and EST sequences derived from nine different species of Eleusine were utilized for identifying microsatellite markers and their transferability in E. coracana. The frequency and distribution of repeat motifs of Di, tri, tetra and penta-nucleotide repeats were compared across species. The nucleotide/EST sequences, classified based on their function, were majorly involved in abiotic stress followed by carbohydrate biosynthesis in all the species. Of 2133 primers designed, tri-nucleotide repeats were more abundant (1043) followed by repeats in compound format (963). A highest number of 1660 primer pairs were identified in E. coracana subsp. coracana and nearly 50% of which contained compound repeats, majorly comprising of di-nucleotides. The frequency of microsatellite repeats and the number of primers designed per sequence were maximum in E. kigeziensis (138%) followed by E. floccifolia (126%) while the same was minimum in E. coracana subsp. africana (53%). While the transferability of microsatellites derived from other Eleusine species to cultivated coracana species ranged from 50 to 100%, the primers derived from cultivated species were more informative than from that of wild relatives.},
 year = {2017}
}

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TY - JOUR
T1 - Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet
AU - Nagabhushana Kotrappa
AU - Shailaja Hittalmani
AU - Krishna Venkatarangaiah
Y1 - 2017/08/01
PY - 2017
N1 - https://doi.org/10.11648/j.ijgg.20170504.12
DO - 10.11648/j.ijgg.20170504.12
T2 - International Journal of Genetics and Genomics
JF - International Journal of Genetics and Genomics
JO - International Journal of Genetics and Genomics
SP - 42
EP - 48
PB - Science Publishing Group
SN - 2376-7359
UR - https://doi.org/10.11648/j.ijgg.20170504.12
AB - The accessibility to public sequence information has paved the way for development of new genomic resources and its cross transferability among closely related genera. In the present study, the nucleotide and EST sequences derived from nine different species of Eleusine were utilized for identifying microsatellite markers and their transferability in E. coracana. The frequency and distribution of repeat motifs of Di, tri, tetra and penta-nucleotide repeats were compared across species. The nucleotide/EST sequences, classified based on their function, were majorly involved in abiotic stress followed by carbohydrate biosynthesis in all the species. Of 2133 primers designed, tri-nucleotide repeats were more abundant (1043) followed by repeats in compound format (963). A highest number of 1660 primer pairs were identified in E. coracana subsp. coracana and nearly 50% of which contained compound repeats, majorly comprising of di-nucleotides. The frequency of microsatellite repeats and the number of primers designed per sequence were maximum in E. kigeziensis (138%) followed by E. floccifolia (126%) while the same was minimum in E. coracana subsp. africana (53%). While the transferability of microsatellites derived from other Eleusine species to cultivated coracana species ranged from 50 to 100%, the primers derived from cultivated species were more informative than from that of wild relatives.
VL - 5
IS - 4
ER -

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Author Information

Nagabhushana Kotrappa

Department of Biotechnology, Jnanasahyadri, Shankaraghatta, Kuvempu University, Shimoga, India
Shailaja Hittalmani

Department of Genetics and Plant Breeding, University of Agricultural Sciences, Bengaluru, India
Krishna Venkatarangaiah

Department of Biotechnology, Jnanasahyadri, Shankaraghatta, Kuvempu University, Shimoga, India

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Plain Text BibTeX RIS

APA Style

Nagabhushana Kotrappa, Shailaja Hittalmani, Krishna Venkatarangaiah. (2017). Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet. International Journal of Genetics and Genomics, 5(4), 42-48. https://doi.org/10.11648/j.ijgg.20170504.12

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ACS Style

Nagabhushana Kotrappa; Shailaja Hittalmani; Krishna Venkatarangaiah. Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet. Int. J. Genet. Genomics 2017, 5(4), 42-48. doi: 10.11648/j.ijgg.20170504.12

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AMA Style

Nagabhushana Kotrappa, Shailaja Hittalmani, Krishna Venkatarangaiah. Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet. Int J Genet Genomics. 2017;5(4):42-48. doi: 10.11648/j.ijgg.20170504.12

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@article{10.11648/j.ijgg.20170504.12,
  author = {Nagabhushana Kotrappa and Shailaja Hittalmani and Krishna Venkatarangaiah},
  title = {Inter-species Transferability of Microsatellite Markers Derived from Wild Relatives to Cultivated Species of Finger Millet},
  journal = {International Journal of Genetics and Genomics},
  volume = {5},
  number = {4},
  pages = {42-48},
  doi = {10.11648/j.ijgg.20170504.12},
  url = {https://doi.org/10.11648/j.ijgg.20170504.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijgg.20170504.12},
  abstract = {The accessibility to public sequence information has paved the way for development of new genomic resources and its cross transferability among closely related genera. In the present study, the nucleotide and EST sequences derived from nine different species of Eleusine were utilized for identifying microsatellite markers and their transferability in E. coracana. The frequency and distribution of repeat motifs of Di, tri, tetra and penta-nucleotide repeats were compared across species. The nucleotide/EST sequences, classified based on their function, were majorly involved in abiotic stress followed by carbohydrate biosynthesis in all the species. Of 2133 primers designed, tri-nucleotide repeats were more abundant (1043) followed by repeats in compound format (963). A highest number of 1660 primer pairs were identified in E. coracana subsp. coracana and nearly 50% of which contained compound repeats, majorly comprising of di-nucleotides. The frequency of microsatellite repeats and the number of primers designed per sequence were maximum in E. kigeziensis (138%) followed by E. floccifolia (126%) while the same was minimum in E. coracana subsp. africana (53%). While the transferability of microsatellites derived from other Eleusine species to cultivated coracana species ranged from 50 to 100%, the primers derived from cultivated species were more informative than from that of wild relatives.},
 year = {2017}
}

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